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DTSTART:20250507T090000Z
DTEND:20250509T170000Z
DESCRIPTION:## Overview\nThis course will cover the metagenomics data analy
 sis workflow from data generation to downstream analysis. Participants wil
 l explore the tools to manage\, share\, analyze and interpret metagenomics
  data. The content will include issues of data quality control and how to 
 process the data until publication.  \n\nBoth targeted marker-gene (e.g.\,
  16S) and whole-genome shotgun (WGS) approaches will be covered. Discussio
 ns will also explore considerations when selecting the sequencing options 
 (long or short reads)\, exploring targeted data to OTUs or ASVs\, assembli
 ng and binning metagenomics data\, the analyses that can be carried out\, 
 and what downstream analyses options and tools are available. \n\n## Audie
 nce\nThis course is addressed to life scientists (PhD or postdocs) who are
  working in the field of metagenomics and are currently in the early stage
 s of data preparation or data analysis. \n\n## Learning outcomes\nAt the e
 nd of the course\, the participants are expected to: \n- Know the concepts
  of metagenomics \n- Understand and compare the two main methods (targeted
  vs whole genome) \n- Perform QC and cleaning of the data \n- Comprehend a
 bout various databases and pipelines \n- Evaluate the results of the pipel
 ines \n- Identify downstream analysis options \n\n\n## Prerequisites\n####
 # Knowledge / competencies\nYou should meet the learning outcomes of [Firs
 t Steps with R in Life Sciences](https://www.sib.swiss/training/course/202
 50203_FSWR) and either [First Steps with UNIX in Life Sciences](https://ww
 w.sib.swiss/training/course/20240912_FSWU) or the e-learning course [UNIX 
 Fundamentals](https://www.sib.swiss/training/course/2012_UNIXF).\n\nSpecif
 ically\, participants should be familiar with Rstudio\, how to install a l
 ibrary\, matrix and data frame manipulation\, import and export data from 
 text files. In case of doubt\, evaluate your R skills with this [quiz](htt
 ps://docs.google.com/forms/d/e/1FAIpQLSdIyeuabd_ZOWXgI1MWHapmaOMu20L9ESkLD
 ZiWnpmkpujyOg/viewform?usp=sf_link)\, before registering.\n\n \n##### Tech
 nical\nYou are required to bring your own laptop with the latest [R](https
 ://www.r-project.org/) and [RStudio](https://www.rstudio.com/products/rstu
 dio/download/) versions installed. \n\n## Schedule - CET time zone\n\nThe 
 course will start at 9:00 and end around 17:00. \n\nDay1am: General introd
 uction to the topic and Unix/R reminder \n\nDay1pm: Sequencing options and
  QC (short/long reads) \n\nDay2am: 16S analysis with DADA2 \n\nDay2pm: 16S
  downstream analysis \n\nDay3am: WGS assembly/binning with nfcore-mag \n\n
 Day3pm: WGS downstream analysis \n\n## Application\nThe registration fees 
 for academics are **300 CHF** and **1500 CHF** for for-profit companies.\n
 \n\nWhile participants are registered on a first come\, first served basis
 \, exceptions may be made to ensure diversity and equity\, which may incre
 ase the time before your registration is confirmed.\n\nYou will be informe
 d by email of your registration confirmation. Upon reception of the confir
 mation email\, participants will be asked to confirm attendance by paying 
 the fees within 5 days.\n\nApplications close on *23/04/2025*. Deadline fo
 r free-of-charge cancellation is set to *23/04/2025*. Cancellation after t
 his date will not be reimbursed. Please note that participation in SIB cou
 rses is subject to our [general conditions](https://www.sib.swiss/training
 /terms-and-conditions).\n\n## Venue and Time\n\nThis course will take plac
 e at the University of Fribourg.\n\nThe course will start at 9:00 and end 
 around 17:00. Precise information will be provided to the participants in 
 due time.\n\n\n## Additional information\nCoordination: Valeria Di Cola\, 
 SIB Training Group.\n\nWe will recommend 0.75 ECTS credits for this course
  (given a passed exam at the end of the course).\n\nYou are welcome to reg
 ister to the SIB courses mailing list to be informed of all future courses
  and workshops\, as well as all important deadlines using the form [here](
 https://lists.sib.swiss/postorius/lists/courses.lists.sib.swiss/).\n\nPlea
 se note that participation in SIB courses is subject to our [general condi
 tions](https://www.sib.swiss/training/terms-and-conditions).\n\nSIB abides
  by the [ELIXIR Code of Conduct](https://elixir-europe.org/events/code-of-
 conduct). Participants of SIB courses are also required to abide by the sa
 me code.\n\nFor more information\, please contact [training@sib.swiss](mai
 lto://training@sib.swiss).
SUMMARY:Introduction to Metagenomics Data Analysis of Microbial Communities
URL;VALUE=URI:https://www.sib.swiss/training/course/20250507_MEMIC
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